RegulonDB RegulonDB 10.9: Operon Form
   

lapAB-pyrF-yciH operon and associated TUs in Escherichia coli K-12 genome




Operon      
Name: lapAB-pyrF-yciH
This page displays every known transcription unit of this operon and their known regulation.


Transcription unit       
Name: yciSM-pyrF-yciH
Gene(s): lapA, lapB, pyrF, yciH   Genome Browser M3D Gene expression COLOMBOS
Evidence: [ITCR] Inferred through co-regulation
Reference(s): [1] Nonaka G., et al., 2006
Promoter
Name: lapAp
+1: 1340135
Sigma Factor: Sigma32 Sigmulon
Distance from start of the gene: 108
Sequence: aacgagaacaagaaagttaacgctggttgattttccgaatttagcccttaaatcatcaacAatgcgtgtggatgccatttc
                          -35               -10             +1                   
Evidence: [AIPP]
[ICWHO]
[IDA]
[IEP]
[IHBCE]
[TIM]
Reference(s): [2] Huerta AM., et al., 2003
[3] Klein G., et al., 2014
[1] Nonaka G., et al., 2006
[4] Wade JT., et al., 2006


Transcription unit       
Name: yciSM-pyrF-yciH
Gene(s): lapA, lapB, pyrF, yciH   Genome Browser M3D Gene expression COLOMBOS
Evidence: [ITCR] Inferred through co-regulation
Reference(s): [1] Nonaka G., et al., 2006
Promoter
Name: lapAp1
+1: 1340135
Sigma Factor: Sigma70 Sigmulon
Distance from start of the gene: 108
Sequence: aacgagaacaagaaagttaacgctggttgattttccgaatttagcccttaaatcatcaacAatgcgtgtggatgccatttc
                           -35                     -10      +1                   
Evidence: [AIPP]
[ICWHO]
[IDA]
[IEP]
[TIM]
Reference(s): [2] Huerta AM., et al., 2003
[3] Klein G., et al., 2014
[1] Nonaka G., et al., 2006
[4] Wade JT., et al., 2006


Transcription unit       
Name: lapAB
Gene(s): lapA, lapB   Genome Browser M3D Gene expression COLOMBOS
Note(s): The lapAB operon is subject to heat shock Klein G,2014
Evidence: [ICWHO] Inferred computationally without human oversight
[ITCR] Inferred through co-regulation
[PAGTSBP] Products of adjacent genes in the same biological process
Reference(s): [3] Klein G., et al., 2014
Promoter
Name: lapAp1
+1: 1340135
Sigma Factor: Sigma70 Sigmulon
Distance from start of the gene: 108
Sequence: aacgagaacaagaaagttaacgctggttgattttccgaatttagcccttaaatcatcaacAatgcgtgtggatgccatttc
                           -35                     -10      +1                   
Evidence: [AIPP]
[ICWHO]
[IDA]
[IEP]
[TIM]
Reference(s): [2] Huerta AM., et al., 2003
[3] Klein G., et al., 2014
[1] Nonaka G., et al., 2006
[4] Wade JT., et al., 2006


Transcription unit       
Name: lapAB
Gene(s): lapA, lapB   Genome Browser M3D Gene expression COLOMBOS
Note(s): The lapAB operon is subject to heat shock Klein G,2014
Evidence: [ICWHO] Inferred computationally without human oversight
[ITCR] Inferred through co-regulation
[PAGTSBP] Products of adjacent genes in the same biological process
Reference(s): [3] Klein G., et al., 2014
Promoter
Name: lapAp
+1: 1340135
Sigma Factor: Sigma32 Sigmulon
Distance from start of the gene: 108
Sequence: aacgagaacaagaaagttaacgctggttgattttccgaatttagcccttaaatcatcaacAatgcgtgtggatgccatttc
                          -35               -10             +1                   
Evidence: [AIPP]
[ICWHO]
[IDA]
[IEP]
[IHBCE]
[TIM]
Reference(s): [2] Huerta AM., et al., 2003
[3] Klein G., et al., 2014
[1] Nonaka G., et al., 2006
[4] Wade JT., et al., 2006


Transcription unit       
Name: lapAB
Gene(s): lapA, lapB   Genome Browser M3D Gene expression COLOMBOS
Evidence: [ITCR] Inferred through co-regulation
[PAGTSBP] Products of adjacent genes in the same biological process
Reference(s): [3] Klein G., et al., 2014
Promoter
Name: lapAp2
+1: 1340186
Sigma Factor: Sigma70 Sigmulon
Distance from start of the gene: 57
Sequence: atcatcaacaatgcgtgtggatgccatttcgcagacggcgcgaaaatggtactttaaaggGctattgcggtaagttgacca
                                                  -10       +1                   
Evidence: [IHBCE]
[TIM]
Reference(s): [3] Klein G., et al., 2014


Transcription unit       
Name: pyrF-yciH
Gene(s): pyrF, yciH   Genome Browser M3D Gene expression COLOMBOS
Evidence: [ICWHO] Inferred computationally without human oversight
Promoter
Name: pyrFp
+1: 1341870
Sigma Factor: Sigma70 Sigmulon
Distance from start of the gene: 51
Sequence: gcctgccaggggagaaatcgcaactgttaattttttatttccacgggtagaatgctcgccGtttacctgtttcgcgccact
                           -35                  -10         +1                   
Evidence: [ICWHO]
[RS-EPT-CBR]
[TIM]
Reference(s): [2] Huerta AM., et al., 2003
[5] Salgado H, et al., 2012
[6] Turnbough CL., et al., 1987




Reference(s)    

 [1] Nonaka G., Blankschien M., Herman C., Gross CA., Rhodius VA., 2006, Regulon and promoter analysis of the E. coli heat-shock factor, sigma32, reveals a multifaceted cellular response to heat stress., Genes Dev 20(13):1776-89

 [2] Huerta AM., Collado-Vides J., 2003, Sigma70 promoters in Escherichia coli: specific transcription in dense regions of overlapping promoter-like signals., J Mol Biol 333(2):261-78

 [3] Klein G., Kobylak N., Lindner B., Stupak A., Raina S., 2014, Assembly of lipopolysaccharide in Escherichia coli requires the essential LapB heat shock protein., J Biol Chem 289(21):14829-53

 [4] Wade JT., Roa DC., Grainger DC., Hurd D., Busby SJ., Struhl K., Nudler E., 2006, Extensive functional overlap between sigma factors in Escherichia coli., Nat Struct Mol Biol 13(9):806-14

 [5] Salgado H, Peralta-Gil M, Gama-Castro S, Santos-Zavaleta A, Muñiz-Rascado L, García-Sotelo JS, Weiss V, Solano-Lira H, Martínez-Flores I, Medina-Rivera A, Salgado-Osorio G, Alquicira-Hernández S, Alquicira-Hernández K, López-Fuentes A, Porrón-Sotelo L, Huerta AM, Bonavides-Martínez C, Balderas-Martínez YI, Pannier L, Olvera M, Labastida A, Jiménez-Jacinto V, Vega-Alvarado L, Del Moral-Chávez V, Hernández-Alvarez A, Morett E, Collado-Vides J., 2012, RegulonDB v8.0: omics data sets, evolutionary conservation, regulatory phrases, cross-validated gold standards and more., Nucleic Acids Res.

 [6] Turnbough CL., Kerr KH., Funderburg WR., Donahue JP., Powell FE., 1987, Nucleotide sequence and characterization of the pyrF operon of Escherichia coli K12., J Biol Chem 262(21):10239-45


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